RnoINT0131066 @ rn6
Intron Retention
Gene
ENSRNOG00000002104 | Scaf4
Description
SR-related CTD-associated factor 4 [Source:RGD Symbol;Acc:727896]
Coordinates
chr11:30385457-30385887:-
Coord C1 exon
chr11:30385801-30385887
Coord A exon
chr11:30385649-30385800
Coord C2 exon
chr11:30385457-30385648
Length
152 bp
Sequences
Splice sites
5' ss Seq
ACTGTAAGC
5' ss Score
4.95
3' ss Seq
TCAATGTGATTATTCCTTAGCTA
3' ss Score
4.38
Exon sequences
Seq C1 exon
GTTTTCTTCCTCCTGGACCCCCACCTCCTATAACTCCACCAGTATCCATTCCTCCACCTCACACTCCACCAATAAGCATCCCAAACT
Seq A exon
GTAAGCATGTCTTTCCTCTATGCTGACTTGACGTCTTGGAGTTGGGTAGGAGGGAATGGGAACAAATAGGAGGGTCTGTAGTCTGGGACAAGTTGTTGACCGGGAGCGTGACTAATCACTCAGCTTCACATGTCAATGTGATTATTCCTTAG
Seq C2 exon
CTACTATCGCTGGTATAAATGAAGACACTACAAAAGACTTATCTATTGGAAATCCCATTCCAACAGTGGTGTCTGGGGCTAGAGGAAATGCCGAGTCTGCTGACAGTGCGAAAATGTATGGTTCTGCTGGGCCACCTGCTGCACCCACGAGTCTGCCCACCCCTCCTGTAACCCAGCCTGTTTCACTGCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002104:ENSRNOT00000002881:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.962
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCCACCTCCTATAACTCCACC
R:
GCAGTGAAACAGGCTGGGTTA
Band lengths:
258-410
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]